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Separate -o pipefail into separate list elements
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nf_core/pipeline-template/nextflow.config

Lines changed: 2 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -243,7 +243,8 @@ process.shell = [
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"-C", // No clobber - prevent output redirection from overwriting files.
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"-e", // Exit if a tool returns a non-zero status/exit code
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"-u", // Treat unset variables and parameters as an error
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"-o pipefail" // Returns the status of the last command to exit with a non-zero status or zero if all successfully execute
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"-o", // Returns the status of the last command to exit..
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"pipefail" // ..with a non-zero status or zero if all successfully execute
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]
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// Disable process selector warnings by default. Use debug profile to enable warnings.

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